UniProtKB - P21672 (RIR3_YEAST)
Ribonucleoside-diphosphate reductase large chain 2
RNR3
Functioni
Miscellaneous
Catalytic activityi
- [thioredoxin]-disulfide + a 2'-deoxyribonucleoside 5'-diphosphate + H2O = [thioredoxin]-dithiol + a ribonucleoside 5'-diphosphateEC:1.17.4.1
Activity regulationi
: DNA replication Pathwayi
This protein is involved in the pathway DNA replication, which is part of Genetic information processing.View all proteins of this organism that are known to be involved in the pathway DNA replication and in Genetic information processing.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 5 | Allosteric activatorBy similarity | 1 | |
Binding sitei | 53 | Allosteric activatorBy similarity | 1 | |
Binding sitei | 88 | Allosteric activatorBy similarity | 1 | |
Binding sitei | 202 | SubstrateBy similarity | 1 | |
Sitei | 218 | Important for hydrogen atom transferBy similarity | 1 | |
Sitei | 226 | Allosteric effector binding, determines substrate specificityBy similarity | 1 | |
Binding sitei | 247 | Substrate; via amide nitrogenBy similarity | 1 | |
Sitei | 256 | Allosteric effector binding, determines substrate specificityBy similarity | 1 | |
Active sitei | 426 | Proton acceptorBy similarity | 1 | |
Active sitei | 428 | Cysteine radical intermediateBy similarity | 1 | |
Active sitei | 430 | Proton acceptorBy similarity | 1 | |
Sitei | 443 | Important for hydrogen atom transferBy similarity | 1 | |
Sitei | 741 | Important for electron transferBy similarity | 1 | |
Sitei | 742 | Important for electron transferBy similarity | 1 | |
Sitei | 864 | Interacts with thioredoxin/glutaredoxinBy similarity | 1 | |
Sitei | 867 | Interacts with thioredoxin/glutaredoxinBy similarity | 1 |
GO - Molecular functioni
- ATP binding Source: GO_Central
- ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC
GO - Biological processi
- deoxyribonucleotide biosynthetic process Source: SGD
- DNA replication Source: UniProtKB-UniPathway
- regulation of cellular respiration Source: SGD
Keywordsi
Molecular function | Allosteric enzyme, Oxidoreductase |
Biological process | DNA replication |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | MetaCyc:YIL066C-MONOMER |
UniPathwayi | UPA00326 |
Names & Taxonomyi
Protein namesi | Recommended name: Ribonucleoside-diphosphate reductase large chain 2 (EC:1.17.4.1)Alternative name(s): Ribonucleotide reductase DNA damage-inducible regulatory subunit 2 Ribonucleotide reductase R1 subunit 2 Ribonucleotide reductase large subunit 2 |
Gene namesi | Name:RNR3 Synonyms:DIN1 Ordered Locus Names:YIL066C |
Organismi | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
Taxonomic identifieri | 559292 [NCBI] |
Taxonomic lineagei | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › |
Proteomesi |
|
Organism-specific databases
SGDi | S000001328, RNR3 |
VEuPathDBi | FungiDB:YIL066C |
Subcellular locationi
Other locations
- Cytoplasm 1 Publication
Cytosol
- ribonucleoside-diphosphate reductase complex Source: GO_Central
Mitochondrion
- mitochondrion Source: SGD
Other locations
- cytoplasm Source: SGD
Keywords - Cellular componenti
CytoplasmPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000187204 | 1 – 869 | Ribonucleoside-diphosphate reductase large chain 2Add BLAST | 869 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Disulfide bondi | 218 ↔ 443 | Redox-activeBy similarity | ||
Modified residuei | 227 | PhosphoserineBy similarity | 1 | |
Cross-linki | 387 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity | ||
Modified residuei | 806 | PhosphoserineCombined sources | 1 | |
Modified residuei | 827 | PhosphoserineBy similarity | 1 | |
Modified residuei | 868 | PhosphoserineBy similarity | 1 |
Keywords - PTMi
Disulfide bond, Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
MaxQBi | P21672 |
PaxDbi | P21672 |
PRIDEi | P21672 |
PTM databases
iPTMneti | P21672 |
Expressioni
Inductioni
Interactioni
Subunit structurei
Heterotetramer of two large (R1) and two small (R2) subunits. S.cerevisiae has two different R1 subunits (RNR1 and RNR3) and two different R2 subunits (RNR2 and RNR4). The functional form of the small subunits is a RNR2-RNR4 heterodimer, where RNR2 provides the iron-radical center and RNR4 is required for proper folding of RNR2 and assembly with the large subunits. Under normal growth conditions, the active form of the large subunits is a homodimer of the constitutively expressed RNR1. In damaged cells or cells arrested for DNA synthesis, the reductase consists of multiple species because of the association of the small subunits (RNR2-RNR4) with either the RNR1 homodimer or a heterodimer of RNR1 and the damage-inducible RNR3.
Protein-protein interaction databases
BioGRIDi | 34926, 90 interactors |
ComplexPortali | CPX-1103, Ribonucleoside-diphosphate reductase variant 2 |
DIPi | DIP-2563N |
IntActi | P21672, 32 interactors |
MINTi | P21672 |
STRINGi | 4932.YIL066C |
Miscellaneous databases
RNActi | P21672, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 1 – 92 | ATP-conePROSITE-ProRule annotationAdd BLAST | 92 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 11 – 17 | Allosteric activator bindingBy similarity | 7 | |
Regioni | 217 – 218 | Substrate bindingBy similarity | 2 | |
Regioni | 285 – 288 | Allosteric effector binding, determines substrate specificityBy similarity | 4 | |
Regioni | 426 – 430 | Substrate bindingBy similarity | 5 | |
Regioni | 607 – 611 | Substrate bindingBy similarity | 5 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG1112, Eukaryota |
GeneTreei | ENSGT00910000144246 |
HOGENOMi | CLU_000404_1_2_1 |
InParanoidi | P21672 |
OMAi | RNYAWTK |
Family and domain databases
InterProi | View protein in InterPro IPR005144, ATP-cone_dom IPR013346, NrdE_NrdA IPR000788, RNR_lg_C IPR013509, RNR_lsu_N IPR008926, RNR_R1-su_N IPR039718, Rrm1 |
PANTHERi | PTHR11573, PTHR11573, 1 hit |
Pfami | View protein in Pfam PF03477, ATP-cone, 1 hit PF02867, Ribonuc_red_lgC, 1 hit PF00317, Ribonuc_red_lgN, 1 hit |
PRINTSi | PR01183, RIBORDTASEM1 |
SUPFAMi | SSF48168, SSF48168, 1 hit |
TIGRFAMsi | TIGR02506, NrdE_NrdA, 1 hit |
PROSITEi | View protein in PROSITE PS51161, ATP_CONE, 1 hit PS00089, RIBORED_LARGE, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MYVIKRDGRK EPVQFDKITS RITRLSYGLD PNRIDAVKVT QRIISGVYSG
60 70 80 90 100
VTTVELDNLA AETCAYMTTV HPDYATLAAR IAISNLHKQT TKQFSKVIED
110 120 130 140 150
LHDWINPATG KHAPMISDEI YNIVMENKDT LNSAIVYDRD FQYTYFGFKT
160 170 180 190 200
LERSYLLRLN GEVAERPQHL VMRVALGIHG SDIESVLKTY NLMSLRYFTH
210 220 230 240 250
ASPTLFNAGT PHPQMSSCFL IAMKDDSIEG IYDTLKECAM ISKTAGGVGL
260 270 280 290 300
HINNIRSTGS YIAGTNGTSN GLIPMIRVFN NTARYVDQGG NKRPGAFALF
310 320 330 340 350
LEPWHADIFD FVDIRKTHGK EEIRARDLFP ALWIPDLFMK RVQEDGPWTL
360 370 380 390 400
FSPSAAPGLD DVWGDEFEEL YTRYEREGRG KTIKAQKLWY AILQAQTETG
410 420 430 440 450
TPFMVYKDAC NRKTNQQNLG TIKSSNLCCE IVEYSSPDET AVCNLASIAL
460 470 480 490 500
PAFVEVSEDG KTASYNFERL HEIAKVITHN LNRVIDRNYY PVPEARNSNM
510 520 530 540 550
KHRPIALGVQ GLADTYMMLR LPFESEEAQT LNKQIFETIY HATLEASCEL
560 570 580 590 600
AQKEGKYSTF EGSPASKGIL QFDMWNAKPF GMWDWETLRK DIVKHGLRNS
610 620 630 640 650
LTMAPMPTAS TSQILGYNEC FEPVTSNMYS RRVLSGEFQV VNPYLLRDLV
660 670 680 690 700
DLGIWDDSMK QYLITQNGSI QGLPNVPQEL KELYKTVWEI SQKTIINMAA
710 720 730 740 750
DRAIYIDQSH SLNLFLQAPS MGKITSMHFY GWKKGLKTGM YYLRTQAASA
760 770 780 790 800
AIQFTIDQEV ADQAATHIAS VSELDRPVYV PKGTKFSEQK AASALTESSD
810 820 830 840 850
NEKDASPVPS EQSSVSSAMS NVKLEDSVAP AVPTETIKED SDEKKCDIYN
860
EKVIACTAPT PEACESCSG
Sequence cautioni
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 21 – 22 | RI → VL no nucleotide entry (PubMed:2199320).Curated | 2 | |
Sequence conflicti | 37 | V → F no nucleotide entry (PubMed:2199320).Curated | 1 | |
Sequence conflicti | 58 | N → I no nucleotide entry (PubMed:2199320).Curated | 1 | |
Sequence conflicti | 69 | T → H no nucleotide entry (PubMed:2199320).Curated | 1 | |
Sequence conflicti | 83 | I → T no nucleotide entry (PubMed:2199320).Curated | 1 | |
Sequence conflicti | 212 | H → L in AAA34569 (PubMed:2204819).Curated | 1 | |
Sequence conflicti | 249 | G → V in AAA34569 (PubMed:2204819).Curated | 1 | |
Sequence conflicti | 311 | F → K in AAA34569 (PubMed:2204819).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Z38060 Genomic DNA Translation: CAA86157.1 Different initiation. M58012 Genomic DNA Translation: AAA34569.1 Frameshift. BK006942 Genomic DNA Translation: DAA08484.1 |
PIRi | S48413, WMBY3L |
RefSeqi | NP_012198.3, NM_001179416.3 |
Genome annotation databases
EnsemblFungii | YIL066C_mRNA; YIL066C; YIL066C |
GeneIDi | 854744 |
KEGGi | sce:YIL066C |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Z38060 Genomic DNA Translation: CAA86157.1 Different initiation. M58012 Genomic DNA Translation: AAA34569.1 Frameshift. BK006942 Genomic DNA Translation: DAA08484.1 |
PIRi | S48413, WMBY3L |
RefSeqi | NP_012198.3, NM_001179416.3 |
3D structure databases
SMRi | P21672 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 34926, 90 interactors |
ComplexPortali | CPX-1103, Ribonucleoside-diphosphate reductase variant 2 |
DIPi | DIP-2563N |
IntActi | P21672, 32 interactors |
MINTi | P21672 |
STRINGi | 4932.YIL066C |
PTM databases
iPTMneti | P21672 |
Proteomic databases
MaxQBi | P21672 |
PaxDbi | P21672 |
PRIDEi | P21672 |
Genome annotation databases
EnsemblFungii | YIL066C_mRNA; YIL066C; YIL066C |
GeneIDi | 854744 |
KEGGi | sce:YIL066C |
Organism-specific databases
SGDi | S000001328, RNR3 |
VEuPathDBi | FungiDB:YIL066C |
Phylogenomic databases
eggNOGi | KOG1112, Eukaryota |
GeneTreei | ENSGT00910000144246 |
HOGENOMi | CLU_000404_1_2_1 |
InParanoidi | P21672 |
OMAi | RNYAWTK |
Enzyme and pathway databases
UniPathwayi | UPA00326 |
BioCyci | MetaCyc:YIL066C-MONOMER |
Miscellaneous databases
PROi | PR:P21672 |
RNActi | P21672, protein |
Family and domain databases
InterProi | View protein in InterPro IPR005144, ATP-cone_dom IPR013346, NrdE_NrdA IPR000788, RNR_lg_C IPR013509, RNR_lsu_N IPR008926, RNR_R1-su_N IPR039718, Rrm1 |
PANTHERi | PTHR11573, PTHR11573, 1 hit |
Pfami | View protein in Pfam PF03477, ATP-cone, 1 hit PF02867, Ribonuc_red_lgC, 1 hit PF00317, Ribonuc_red_lgN, 1 hit |
PRINTSi | PR01183, RIBORDTASEM1 |
SUPFAMi | SSF48168, SSF48168, 1 hit |
TIGRFAMsi | TIGR02506, NrdE_NrdA, 1 hit |
PROSITEi | View protein in PROSITE PS51161, ATP_CONE, 1 hit PS00089, RIBORED_LARGE, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | RIR3_YEAST | |
Accessioni | P21672Primary (citable) accession number: P21672 Secondary accession number(s): D6VVL8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 1, 1991 |
Last sequence update: | February 1, 1995 | |
Last modified: | February 10, 2021 | |
This is version 196 of the entry and version 4 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Fungal Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Yeast
Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD - Yeast chromosome IX
Yeast (Saccharomyces cerevisiae) chromosome IX: entries and gene names - PATHWAY comments
Index of metabolic and biosynthesis pathways - SIMILARITY comments
Index of protein domains and families